diff i-adhore.xml @ 9:2b33a6d5211d draft

planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_i_adhore commit a204fdb1b6f8a3859f8aefefe367b6a9deb6811d-dirty

--- a/i-adhore.xml	Fri Aug 25 13:00:41 2017 -0400
+++ b/i-adhore.xml	Fri Aug 25 14:47:41 2017 -0400
@@ -76,7 +76,27 @@
 		<data name="i_adhore_configure" format="html" label="i-adhore configure report" />
 		<data name="i_adhore_configure_txt" format="txt" label="i-adhore configure file" />
 	</outputs>
+	<help>
+		This tool is a wrapper of the i-ADHoRe sofeware. To use this tool, you will need to have i-ADHoRe installed.
+		This tool automatically detects genomic regions with statistically significant conserved gene content and order.
+		Therefore, this tool can be used for analyses within one genome (to look for paralogous regions with duplicated
+		genes) or for comparisons between genomes of different organisms (to look for colinearity). The algorithm was
+		especially designed to cope with micro-rearrangements (events frequently observed within different plant
+		lineages), since these greatly complicate the search for colinear regions.
+	</help>
 	<citations>
+		<citation>
+			@article{proost2011adhore,
+			title={i-ADHoRe 3.0—fast and sensitive detection of genomic homology in extremely large data sets},
+			author={Proost, Sebastian and Fostier, Jan and De Witte, Dieter and Dhoedt, Bart and Demeester, Piet and Van de Peer, Yves and Vandepoele, Klaas},
+			journal={Nucleic acids research},
+			volume={40},
+			number={2},
+			pages={e11--e11},
+			year={2011},
+			publisher={Oxford University Press}
+			}
+		</citation>
 		<citation type="bibtex">
 			@article{allaire2016rmarkdown,
 			title={rmarkdown: Dynamic Documents for R, 2016},